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1 <tool id="long_reads_sampling" name="Create sample of long reads" version="0.1.0">
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2 <requirements>
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3 <requirement type="package">biopython</requirement>
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4 <requirement type="package">python3</requirement>
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5 </requirements>
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6 <command detect_errors="exit_code"><![CDATA[
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7 python3 $__tool_directory__/long_reads_sampling.py -i "$input1" -o "$output1" -l ${total_length} -s ${seed}
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8 ]]></command>
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9 <inputs>
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10 <param type="data" name="input1" format="fasta" label="input sequence in fasta format"/>
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11 <param name="total_length" type="integer" label="Total length of sampled sequences" value="10000" />
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12 <param name="seed" type="integer" label="seed for setting random number generator" value="123" />
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13 </inputs>
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14 <outputs>
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15 <data name="output1" format="fasta" />
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16 </outputs>
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17 <tests>
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18 <test>
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19 <param name="input1" value="read_10k_ALL_oxford_nanopore_sample" />
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20 <param name="total_length" value="1000000" />
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21 <param name="seed" value="1234" />
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22 <output name="output1" file="sampled.fasta"/>
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23 </test>
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24 </tests>
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25 <help><![CDATA[
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26 This tools is for random sampling of long reads te get specified total amount of data
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27 ]]></help>
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28 <citations>
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29 </citations>
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30 </tool>
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